Experiment: 8QHL

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6F9V

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	289.15	30% PEG 550 MME/PEG 20000, 0.1 M Tris/Bicine pH 8.5, and 60 mM divalent cations (molecular dimensions screen, Morpheus A9)

Crystal Properties
Matthews coefficient	Solvent content
2.84	56.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 73.337	α = 88.75
b = 78.222	β = 64.703
c = 83.011	γ = 75.248

Symmetry
Space Group	P 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M-F		2016-12-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9282	Diamond	I04

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.9	75.27	97.9	0.06	0.997	7.2	6.9		123919

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.9	1.93			0.937	0.357

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1.9	75.268	123910	6246	97.891	0.191	0.1883	0.233	RANDOM	41.21

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-0.526	0.365	0.145	-0.333	0.702	0.606

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.311
r_dihedral_angle_3_deg	16.249
r_dihedral_angle_2_deg	10.413
r_lrange_it	7.409
r_dihedral_angle_1_deg	6.974
r_scangle_it	5.991
r_scbond_it	4.281
r_mcangle_it	3.564
r_mcbond_it	2.666
r_angle_refined_deg	2.058

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.311
r_dihedral_angle_3_deg	16.249
r_dihedral_angle_2_deg	10.413
r_lrange_it	7.409
r_dihedral_angle_1_deg	6.974
r_scangle_it	5.991
r_scbond_it	4.281
r_mcangle_it	3.564
r_mcbond_it	2.666
r_angle_refined_deg	2.058
r_nbtor_refined	0.313
r_nbd_refined	0.22
r_symmetry_nbd_refined	0.211
r_chiral_restr	0.141
r_xyhbond_nbd_refined	0.14
r_symmetry_xyhbond_nbd_refined	0.124
r_bond_refined_d	0.014
r_gen_planes_refined	0.012

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9914
Nucleic Acid Atoms
Solvent Atoms	445
Heterogen Atoms	326

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.